Journal article
Federated learning enables big data for rare cancer boundary detection
Nature communications, Vol.13, 7346
12/05/2022
DOI: 10.1038/s41467-022-33407-5
PMCID: PMC9722782
PMID: 36470898
Abstract
Although machine learning (ML) has shown promise across disciplines, out-of-sample generalizability is concerning. This is currently addressed by sharing multi-site data, but such centralization is challenging/infeasible to scale due to various limitations. Federated ML (FL) provides an alternative paradigm for accurate and generalizable ML, by only sharing numerical model updates. Here we present the largest FL study to-date, involving data from 71 sites across 6 continents, to generate an automatic tumor boundary detector for the rare disease of glioblastoma, reporting the largest such dataset in the literature (n = 6, 314). We demonstrate a 33% delineation improvement for the surgically targetable tumor, and 23% for the complete tumor extent, over a publicly trained model. We anticipate our study to: 1) enable more healthcare studies informed by large diverse data, ensuring meaningful results for rare diseases and underrepresented populations, 2) facilitate further analyses for glioblastoma by releasing our consensus model, and 3) demonstrate the FL effectiveness at such scale and task-complexity as a paradigm shift for multi-site collaborations, alleviating the need for data-sharing.
Details
- Title: Subtitle
- Federated learning enables big data for rare cancer boundary detection
- Creators
- Sarthak PatiStephen Baek - University of Iowa, Radiation OncologyYusung Kim - University of Iowa, Radiation OncologyUjjwal BaidBrandon EdwardsBryan Allen - University of Iowa, Radiation OncologyMicah ShellerJohn M Buatti - University of Iowa, Radiation OncologyShih-Han WangG Anthony ReinaPatrick FoleyAlexey GruzdevDeepthi KarkadaChristos DavatzikosChiharu SakoSatyam GhodasaraMichel BilelloSuyash Mohan - University of IowaPhilipp VollmuthGianluca BrugnaraChandrakanth J PreethaFelix SahmKlaus Maier-Hein - German Cancer Research CenterMaximilian ZenkMartin BendszusWolfgang WickEvan CalabreseJeffrey RudieJavier Villanueva-MeyerSoonmee ChaMadhura IngalhalikarManali JadhavUmang PandeyJitender SainiJohn GarrettMatthew LarsonRobert JerajStuart CurrieRussell FroodKavi FataniaRaymond Y HuangKen ChangCarmen BalañaJaume CapelladesJosep PuigJohannes TrenklerJosef PichlerGeorg NeckerAndreas HaunschmidtStephan MeckelGaurav ShuklaSpencer LiemGregory S AlexanderJoseph LombardoJoshua D PalmerMeirui JiangAdam E FlandersTiffany Y SoPheng Ann HengAdam P DickerHaris I Sair - Johns Hopkins MedicineCheng Chen - University of IowaCraig K JonesQi DouArchana VenkataramanMichal KozubekFilip LuxJan MichálekPetr MatulaMiloš KeřkovskýTereza KopřivováMarek DostálVáclav VybíhalMichael A VogelbaumJ Ross MitchellJoaquim FarinhasJoseph A MaldjianChandan Ganesh Bangalore YoganandaMarco C PinhoDivya ReddyJames HolcombBenjamin C WagnerBenjamin M EllingsonTimothy F CloughesyCatalina RaymondTalia OughourlianAkifumi HagiwaraChencai WangMinh-Son ToSargam BhardwajChee ChongMarc AgzarianAlexandre Xavier FalcãoSamuel B MartinsBernardo C A TeixeiraFlávia SprengerDavid MenottiDiego R LucioPamela LaMontagneDaniel MarcusBenedikt WiestlerFlorian KoflerIvan EzhovMarie MetzRajan JainMatthew LeeYvonne W LuiRichard McKinleyJohannes SlotboomPiotr RadojewskiRaphael MeierRoland WiestDerrick MurciaEric FuRourke HaasJohn ThompsonDavid Ryan OrmondChaitra BadveAndrew E SloanVachan VadmalKristin WaiteRivka R Colen - The University of Texas MD Anderson Cancer CenterLinmin Pei - Old Dominion UniversityMurat AkAshok SrinivasanJ Rajiv BapurajArvind Rao - The University of Texas MD Anderson Cancer CenterNicholas WangOta YoshiakiToshio Moritani - University of Michigan–Ann ArborSevcan TurkJoonsang LeeSnehal PrabhudesaiFanny MorónJacob MandelKonstantinos KamnitsasBen GlockerLuke V M DixonMatthew Williams - University of UtahPeter ZampakisVasileios PanagiotopoulosPanagiotis TsiganosSotiris AlexiouIlias HaliassosEvangelia I ZacharakiKonstantinos MoustakasChristina KalogeropoulouDimitrios M KardamakisYoon Seong ChoiSeung-Koo LeeJong Hee ChangSung Soo AhnBing LuoLaila PoissonNing WenPallavi TiwariRuchika VermaRohan BarejaIpsa YadavJonathan ChenNeeraj Kumar - University of California, Santa BarbaraMarion SmitsSebastian R van der VoortAhmed AlafandiFatih IncekaraMaarten M J WijnengaGeorgios KapsasRenske GahrmannJoost W SchoutenHendrikus J DubbinkArnaud J P E VincentMartin J van den BentPim J FrenchStefan KleinYading YuanSonam SharmaTzu-Chi TsengSaba AdabiSimone P NiclouOlivier KeunenAnn-Christin HauMartin VallièresDavid FortinMartin LepageBennett LandmanKarthik RamadassKaiwen XuSilky ChotaiLola B ChamblessAkshitkumar MistryReid C ThompsonYuriy GusevKrithika BhuvaneshwarAnousheh SayahCamelia BencheqrounAnas BeloualiSubha Madhavan - Georgetown UniversityThomas C BoothAlysha ChelliahMarc ModatHaris ShuaibCarmen DragosAly AbayazeedKenneth KolodziejMichael Hill - Washington and Lee UniversityAhmed AbbassyShady GamalMahmoud MekhaimarMohamed QayatiMauricio ReyesJi Eun ParkJihye YunHo Sung KimAbhishek MahajanMark MuziSean BensonRegina G H Beets-TanJonas TeuwenAlejandro Herrera-TrujilloMaria TrujilloWilliam EscobarAna AbelloJose BernalJhon GómezJoseph ChoiHeba IsmaelAikaterini KotrotsouHongwei LiTobias WeissMichael WellerAndrea BinkBertrand PouymayouHassan F ShaykhJoel SaltzPrateek PrasannaSampurna ShresthaKartik M ManiDavid PayneTahsin Kurc - Stony Brook UniversityEnrique PelaezHeydy Franco-MaldonadoFrancis LoayzaSebastian QuevedoPamela GuevaraEsteban TorcheCristobal MendozaFranco VeraElvis RíosEduardo LópezSergio A VelastinGodwin OgboleMayowa SoneyeDotun OyekunleOlubunmi Odafe-OyibothaBabatunde OsobuMustapha Shu'aibuAdeleye DorcasFarouk DakoAmber L Simpson - Memorial Sloan Kettering Cancer CenterMohammad HamghalamJacob J PeoplesRicky HuAnh TranDanielle CutlerFabio Y MoraesMichael A BossJames GimpelDeepak Kattil VeettilKendall SchmidtBrian BialeckiSailaja MarellaCynthia PriceLisa CiminoCharles ApgarPrashant ShahBjoern MenzeJill S Barnholtz-SloanJason MartinSpyridon Bakas
- Resource Type
- Journal article
- Publication Details
- Nature communications, Vol.13, 7346
- Publisher
- Nature Publishing Group
- DOI
- 10.1038/s41467-022-33407-5
- PMID
- 36470898
- PMCID
- PMC9722782
- eISSN
- 2041-1723
- Language
- English
- Date published
- 12/05/2022
- Academic Unit
- Radiation Oncology; Neurosurgery; Otolaryngology
- Record Identifier
- 9984305122102771
Metrics
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